PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Dca49318.1
Organism
Dianthus caryophyllus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus
Family ARF
Protein Properties Length: 758aa    MW: 83940.7 Da    PI: 6.926
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Dca49318.1genomeDCAView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.41.2e-22137238199
                 EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                 f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ F +++ L +gD v+F   + +++el+
  Dca49318.1 137 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKLQRP-SQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFISQKSLVSGDAVLFL--RGDDGELR 232
                 99****************************9977754.569************************************************..3489999* PP

                 EEEE-S CS
          B3  94 vkvfrk 99 
                 ++++r+
  Dca49318.1 233 LGIRRA 238
                 ***996 PP
2Auxin_resp113.22.4e-37263344182
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                 +a+a+st+++F+v+YnPras++eFvv+++k+ k+++ ++s G+Rfkm+++++dsse+r++G+++g +dldp++Wp+SkWr+L
  Dca49318.1 263 VANAVSTNTTFHVFYNPRASHPEFVVPYQKFAKSISYPISTGTRFKMSLDMDDSSETRCTGVIIGARDLDPYKWPGSKWRCL 344
                 689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.6E-40128251IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.49E-43130251IPR015300DNA-binding pseudobarrel domain
CDDcd100172.97E-21135237No hitNo description
PfamPF023629.0E-21137238IPR003340B3 DNA binding domain
SMARTSM010192.2E-22137239IPR003340B3 DNA binding domain
PROSITE profilePS5086312.647137239IPR003340B3 DNA binding domain
PfamPF065076.8E-32263344IPR010525Auxin response factor
PROSITE profilePS5174524.255630712IPR000270PB1 domain
SuperFamilySSF542778.83E-10632708No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 758 aa     Download sequence    Send to blast
MGIDLNHALL GTSEMSKGCT TYNQLWHACV GPLITSLPKK GNFVVYFPQG HLEQISSSSS  60
SSSSLNILNY GLQPHIFCRV VNLQLLANKE NDEVYTQLSL LPIRESGRND LGSEEVEGLG  120
VEEEGRNSLP KSTPHMFCKT LTASDTSTHG GFSVPRRAAE DCFPPLDYKL QRPSQELVAK  180
DLHGVEWRFR HIYRGQPRRH LLTTGWSIFI SQKSLVSGDA VLFLRGDDGE LRLGIRRAVR  240
PKNGLPDSVI RNQKAYPNVL SAVANAVSTN TTFHVFYNPR ASHPEFVVPY QKFAKSISYP  300
ISTGTRFKMS LDMDDSSETR CTGVIIGARD LDPYKWPGSK WRCLMVKWDE DIVNNNHELV  360
SPWEIDPSVS LPPLCIQSSP RLKKLKTGLP SSPTNLVHAG GLGGFDFEEP AGSSKVLQGQ  420
EIFRFASPSH GFDTVRSILD NGVKPFGPST FSRTGTTRKN TDDFRTLAQP VSYRGISESV  480
RFPKVLQGQE ICSLKCFPGK ANLSPGVWVN PGLASGYFNS NEPKVDFYPL ASEGVRHMYF  540
PYNEVYKNSS MIDNATFGSS SILSDMVREQ VRKPDIPDWL GIKTSGNSLD TNLEDPTDGS  600
ANLSSPNYKL FGFPLERETS ATKVDVSGKR SCTKVHKQGS LVGRAIDLSK LKSYEDLVNE  660
LEHLFGMEGL LHDPTKGWSI LYTDKENDVM VVGDDPWHEF CNVVSKIHVH TREEVEKMTI  720
GMVTDDNHSC LEEAPGPTDA SKTSSEGHPN SSPTVIKT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1092336721354Auxin response factor 1
4ldw_A1e-1092336721354Auxin response factor 1
4ldw_B1e-1092336721354Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010689575.10.0PREDICTED: auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0K9S3750.0A0A0K9S375_SPIOL; Auxin response factor
STRINGXP_010689575.10.0(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]